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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattagttatataatgaattcatgttaaggttatgatttggttctgataaatctttttactctcttttctctaaaccgaacactgtgttcactgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAATTATCTAGGGGCAATTAAGAATTGGGTTGCACTTCAG

Basic information

species Zea mays
transcript GRMZM2G177970_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G177970_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g54020.1 (Oryza sativa), 3'ss of exon 2
aattagttatataatgaattcatgttaaggttatgatttggttctgataaatctttttactctcttttctctaaaccgaacac-------tgtgttcactg-ttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAATTATCTAGGGGCAATTAAGAATTGGGTTGCACTTCAG
      || | |  | |    ||   || ||| ||   | || ||||| ||  | ||||  | | |||| ||||   |||||        | | |  ||||  |||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||| || || ||||||||||||||| ||||||||
-----ttttttttttcag---ataacaaagttctggcctagtcctgattaaaatatttatacgcgtttcactaatttgaacatctatatttatctctactgactgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATTGGTACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|60398533|gb|DN231349.1|DN231349
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCCGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|211458161|gb|FL127573.1|FL127573
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|211458164|gb|FL127576.1|FL127576
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|71449704|gb|DR830754.1|DR830754
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|50331394|gb|CO526520.1|CO526520
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|211458162|gb|FL127574.1|FL127574
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCCGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|76294199|gb|DV033767.1|DV033767
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|211458163|gb|FL127575.1|FL127575
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
EST: gi|78120428|gb|DV538812.1|DV538812
EST:     GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAA                         GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA
genomic: GAAGCCGTTCCCGGCCCCACCGAGGAGGCGCCTGCTCCTCAGGCAAGGAAgtaagttcag ... actgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataaatctttttactctcttttctctaaaccgaacactgtgttcactgttgcagGAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAATTATCTAGGGGCAATTAAGAATTGGGTTGCACTTCAG
                       ctctaaa  putative branch site (score: 3)
     atcttttta  TA-rich tract